DreEX6020625 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10025290-10034915:-
Coord C1 exon
chr6:10034424-10034915
Coord A exon
chr6:10029098-10029230
Coord C2 exon
chr6:10025290-10025444
Length
133 bp
Sequences
Splice sites
3' ss Seq
CTGCATGGATGCCTGTTTAGAAG
3' ss Score
2.07
5' ss Seq
AAGGTACTT
5' ss Score
8.4
Exon sequences
Seq C1 exon
GTGTTGAACTTGTTCCTGGCCTTGCTGCTGAGCTCTTTCAGTGCCGATAATCTGGCCGCCACCGATGACGACAGCGAAATGAACAACCTGCAGATCGCCGTGGGCAGAATACAGAAAGGTATCGCTCTGGTCAAGTCCACTCTCCGTCAGTTCCTGCAAAGCCTCTTCTTGGCCGGCTCTAAACCACGCTCCCTAGATGAGGAGAAGCCCCTTGACGACCTCCACAGTGACGGCAAAGAGAACTGCCTGTCCAATCACGCTCCGGTAGCCGTCGATCTCACTAAGGACTATCTGAAGGAGGGCTGTGTCTCTCCTGGTAATGGGGTGGAGAGTCATGTAAAGTATGGAATTGAGGAAGGCGACTACATGTCGTTCATCCACAATCCCAGCCTCACGGTTACAGTACCGATAGCGGTGGGAGAGTCGGACTTTGAAAACCTGAACACGGAAGATTTCAGTAGCGAATCATCTGACGTGGAGGGAAGTAAAGAG
Seq A exon
AAGCTACCTGTCGATACGGTTCTCAGTTCCTCGGAGGGGAGCACAGTGGATATTCGCCCCCCTGGAGAGGGGGCAGAGTCTGTCGAATTGGAGCCGGAGGAGTCCCTGGACCCAGAGGCCTGCTTCACAGAAG
Seq C2 exon
GCTGTGTGATGAGGTTTCAGTGCTGTCAGGTCGATGTGGAGAAGGGAAAATGGAAGAGTTGGTGGATTCTCAGGAAAACCTGCTTTATCATAGTAGAGCACAACTGGTTTGAGTCCTTCATCATCTTCATGATTTTACTCAGCAGCGGAGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'22-25,'22-23,25-25=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.162 A=0.422 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=4.9),PF065128=Na_trans_assoc=PU(60.9=85.4)
A:
PF065128=Na_trans_assoc=FE(19.1=100)
C2:
PF065128=Na_trans_assoc=PD(19.1=84.6)
Main Skipping Isoform:
ENSDART00000151247fB5415
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGGAGGGCTGTGTCTCTC
R:
CCCTTCTCCACATCGACCTGA
Band lengths:
246-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]